genome.fa.s260.2.7.7.80.10.50.1000.23.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  23  of  26  ( 3102 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4649469--4649880	129	3.0	140	90	7	711	43	14	14	27	1.84
4651864--4651900	14	2.6	14	91	4	56	5	21	21	51	1.68
4652090--4652143	24	2.2	24	93	0	90	40	20	18	20	1.91
4652964--4653051	20	4.3	20	71	8	79	23	15	29	30	1.96
4653066--4653111	19	2.4	19	85	3	56	21	17	30	30	1.96
4653077--4653113	19	1.9	19	94	0	65	21	16	29	32	1.95
4657233--4657344	54	2.1	54	86	3	154	50	17	3	28	1.63
4662369--4662423	13	4.7	12	72	19	53	67	7	1	23	1.26
4662614--4662645	15	2.1	15	94	0	55	6	34	21	37	1.79
4662612--4662649	18	2.1	18	95	0	67	10	34	21	34	1.87
4664678--4664741	28	2.2	31	86	8	89	64	3	0	32	1.10
4671335--4671380	16	2.9	15	81	12	56	80	0	4	15	0.86
4671348--4671379	10	3.2	10	90	0	55	78	0	3	18	0.89
4671710--4671791	2	44.0	2	80	13	86	53	1	1	43	1.16
4671727--4671804	37	2.1	37	86	9	106	55	1	3	39	1.26
4672267--4672371	37	2.8	37	85	0	138	30	15	13	40	1.85
4672718--4672780	22	2.9	22	97	0	117	23	12	28	34	1.92
4673406--4673459	16	2.9	20	76	21	71	0	11	9	79	0.93
4673390--4673459	36	1.9	36	91	0	113	1	12	8	77	1.06
4673389--4673455	16	3.9	16	76	14	62	1	13	7	77	1.04
4673408--4673445	11	3.7	10	83	16	51	0	10	7	81	0.87
4677966--4678003	19	2.1	19	85	5	51	76	0	10	13	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4678011--4678056	4	11.2	4	82	17	51	73	0	6	19	1.04
4678060--4678088	2	14.5	2	100	0	58	51	0	0	48	1.00
4678314--4678377	2	35.0	2	75	17	50	54	1	1	42	1.19
4678307--4678387	37	2.2	38	84	10	105	58	1	4	35	1.28
4678851--4678955	37	2.8	37	86	0	147	30	14	15	40	1.87
4683180--4683259	2	40.0	2	94	0	142	47	0	2	50	1.14
4685587--4685640	25	2.2	25	100	0	108	29	27	20	22	1.98
4694337--4694455	50	2.4	50	88	0	166	30	30	10	28	1.91
4699062--4699186	50	2.5	50	86	0	169	30	29	9	30	1.89
4699181--4699269	40	2.2	40	82	4	99	34	17	11	35	1.86
4700452--4700480	12	2.3	13	94	5	51	37	0	3	58	1.15
4700370--4700548	80	2.2	82	90	4	274	31	2	11	55	1.47
4701129--4701162	17	2.0	17	88	0	50	23	0	2	73	0.97
4708656--4708814	85	1.9	84	87	6	232	28	3	11	56	1.50
4711198--4711231	17	2.1	16	88	5	50	32	0	0	67	0.91
4712682--4712724	22	2.0	21	86	8	61	25	0	0	74	0.82
4719722--4719798	27	2.9	27	96	0	136	36	20	14	28	1.92
4721387--4722287	4	225.8	4	99	0	1788	50	24	0	25	1.50
4727928--4727997	32	2.2	32	84	5	88	35	11	20	32	1.88
4731974--4732022	2	24.5	2	100	0	98	51	0	0	48	1.00
4732958--4732991	17	2.1	17	88	5	52	0	23	0	76	0.79
4734783--4734823	18	2.4	16	88	8	55	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4735589--4735624	3	12.0	3	100	0	72	66	0	0	33	0.92
4739131--4739164	15	2.3	15	89	0	50	76	0	2	20	0.92
4739151--4739203	21	2.5	20	82	11	61	71	5	3	18	1.21
4740744--4740787	18	2.5	17	82	7	52	31	2	0	65	1.05
4749789--4749819	2	15.5	2	100	0	62	48	0	0	51	1.00
4750614--4750734	62	2.0	62	93	0	206	19	29	11	39	1.86
4751169--4751233	32	2.0	32	87	0	94	32	13	9	44	1.76
4753487--4753534	2	24.5	2	95	4	89	50	0	0	50	1.00
4755837--4755875	21	1.9	20	89	5	60	56	0	7	35	1.28
4769028--4769161	43	3.1	42	77	10	137	24	20	21	33	1.97
4769500--4769576	21	3.7	21	85	0	109	5	40	15	38	1.70
4769500--4769629	21	6.2	21	78	5	102	3	39	16	40	1.67
4770199--4770830	314	2.0	315	96	3	1175	29	21	14	34	1.93
4778173--4778327	83	1.9	82	83	4	204	30	23	16	29	1.96
4779212--4779249	18	2.2	18	85	4	51	52	0	0	47	1.00
4780963--4781123	60	2.7	59	82	12	195	31	23	4	40	1.74
4781249--4781385	60	2.3	60	81	5	152	43	5	21	29	1.74
4782617--4782726	2	59.0	2	70	13	83	50	0	0	50	1.00
4782645--4782726	39	2.1	40	82	13	100	50	0	0	50	1.00
4786308--4786544	130	1.8	131	91	0	395	31	10	16	41	1.82
4789827--4789878	16	3.1	16	84	13	68	28	17	21	32	1.96
4789808--4789907	19	5.4	19	83	10	109	28	15	23	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4789853--4789916	19	3.4	19	93	0	101	31	17	15	35	1.91
4795016--4795056	6	6.8	6	91	8	66	34	2	12	51	1.52
4795016--4795061	18	2.5	18	86	10	67	34	4	10	50	1.57
4798542--4798641	8	12.2	8	70	19	64	78	1	15	6	1.00
4798539--4798640	6	16.3	6	71	18	50	77	0	15	5	1.01
4798546--4798646	27	3.8	26	76	16	91	78	0	13	6	1.01
4798594--4798641	11	4.6	11	71	23	50	79	2	18	0	0.84
4798578--4798629	17	3.0	18	81	13	56	76	1	17	3	1.02
4800024--4800355	133	2.5	133	82	2	416	33	22	15	29	1.94
4801633--4801971	108	3.1	107	84	7	368	20	15	17	46	1.84
4803769--4803860	2	46.0	2	100	0	184	50	0	0	50	1.00
4805205--4805237	2	16.5	2	100	0	66	51	0	0	48	1.00
4809072--4809116	6	7.5	6	100	0	90	35	0	31	33	1.58
4809134--4809171	19	2.0	19	100	0	76	26	15	21	36	1.93
4812538--4812595	29	2.0	29	80	12	66	24	12	5	58	1.54
4816950--4816980	16	1.9	16	100	0	62	12	0	0	87	0.55
4820070--4820117	18	2.5	20	80	16	64	72	0	22	4	1.01
4820082--4820128	8	5.6	9	83	16	57	76	0	21	2	0.89
4820082--4820127	18	2.8	16	90	9	67	76	0	21	2	0.90
4820069--4820130	18	3.4	18	80	10	56	75	0	20	3	0.94
4820082--4820136	16	3.2	17	73	19	51	74	0	20	5	1.01
4822368--4822440	36	2.0	36	82	10	87	31	20	9	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4822255--4822496	102	2.4	103	88	1	362	33	18	10	38	1.84
4822749--4823340	163	3.6	158	79	8	503	38	15	18	27	1.91
4823274--4823421	74	2.0	74	93	0	251	39	9	20	29	1.84
4823115--4823574	237	1.9	236	81	6	556	38	13	20	28	1.90
4824863--4824893	12	2.5	13	89	10	55	29	0	0	70	0.87
4825178--4825213	14	2.6	14	90	0	54	25	13	2	58	1.49
4827739--4827910	3	58.0	3	87	6	226	68	1	28	1	1.07
4830089--4830200	42	2.7	42	73	8	102	24	18	22	34	1.96
4830084--4830545	231	2.0	231	82	4	565	32	14	18	34	1.91
4832150--4832186	14	2.6	14	100	0	74	29	0	5	64	1.15
4832461--4832491	16	1.9	16	93	0	53	51	6	0	41	1.27
4835177--4835290	36	3.2	36	76	6	108	27	18	18	35	1.94
4837457--4837484	5	5.6	5	100	0	56	57	0	0	42	0.99
4837781--4837820	3	13.3	3	100	0	80	32	0	0	67	0.91
4843874--4843926	20	2.7	20	87	0	79	35	33	16	13	1.88
4844574--4844607	7	5.0	7	96	3	61	29	0	0	70	0.87
4854660--4854717	3	19.7	3	89	3	91	65	1	1	31	1.13
4859858--4859893	10	3.7	10	96	3	65	30	33	11	25	1.90
4870474--4870518	20	2.2	20	84	0	54	51	2	2	44	1.26
4871086--4871140	14	4.0	14	76	11	60	52	1	1	43	1.22
4871505--4871567	31	2.2	28	81	15	76	28	25	23	22	1.99
4877040--4877091	22	2.4	22	75	18	54	26	0	28	44	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4880535--4880656	16	7.5	17	73	13	80	48	1	2	47	1.25
4880560--4880656	49	2.0	49	97	0	185	45	2	3	49	1.29
4881177--4881481	151	2.0	153	96	3	562	40	16	12	30	1.86
4885428--4885474	18	2.6	18	93	0	76	17	31	17	34	1.92
4885519--4885555	11	3.2	12	85	11	51	10	13	0	75	1.04
4885498--4885560	17	3.7	17	80	16	60	14	11	0	74	1.07
4894284--4894317	14	2.4	14	85	0	50	70	0	11	17	1.16
4894442--4894475	11	3.0	11	91	4	50	82	0	5	11	0.83
4899516--4899562	22	2.2	21	85	7	60	27	14	17	40	1.89
4902943--4903010	13	5.2	13	87	0	82	30	22	14	32	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26